Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_4 g17088 g17088.t1 TSS g17088.t1 12434328 12434328
chr_4 g17088 g17088.t1 isoform g17088.t1 12434455 12435997
chr_4 g17088 g17088.t1 exon g17088.t1.exon1 12434455 12434578
chr_4 g17088 g17088.t1 cds g17088.t1.CDS1 12434455 12434578
chr_4 g17088 g17088.t1 exon g17088.t1.exon2 12434852 12435220
chr_4 g17088 g17088.t1 cds g17088.t1.CDS2 12434852 12435220
chr_4 g17088 g17088.t1 exon g17088.t1.exon3 12435309 12435469
chr_4 g17088 g17088.t1 cds g17088.t1.CDS3 12435309 12435469
chr_4 g17088 g17088.t1 exon g17088.t1.exon4 12435905 12435997
chr_4 g17088 g17088.t1 cds g17088.t1.CDS4 12435905 12435997
chr_4 g17088 g17088.t1 TTS g17088.t1 NA NA

Sequences

>g17088.t1 Gene=g17088 Length=747
ATGAAAATTTTTGTAGTTTTTGTTTTTATTGTGAGATGCAATGCATTTTTTGATAATTTA
ACTGGACCATATTTCTTATGGAGTTCTGAAAATTTAGACAATTTTAAATTACCGGCATTA
CAAGCAATCGACGAACAAAATCTTCGTGAAATTTACAGTAAATTTTCCAAAATAAAATTT
TTTATCAGAAACAAAACCACAATAATAAATAAAGAAAATTTTCCTAAACTCTCTCAAATT
ATTGACAAATCTGAAAATTGGATATATTTGCCCCAACAATTTCTCACAATTTATCCAGAT
GCAAAAAATGTTGAAATTTTTAAACTTTTTGGTTCAATGACTGAACAAGATGAGAAAATT
TTAGAAATTTTTGAAGATGCTCAAAATAAATTTGGTGACAAAAAAGTTCTTAGAATTTTA
GCAACACAAAATGACATGAATAAAAGAACAAAAAGAGAAGTGGAACCAAATTATTTAGTT
TATGCTGTTCCTGGAAAAATTCTTTTTTACTTATATTCACCACCAGAACTTGAAATATTT
GGTGAAAATGGAAAATACTCAAAATACTTATTGAACAAATATCTTTCAATTTCAGTAGAT
CAAAAAGAAACTTTTCAACAATTATTTGTGAATTATCAAATAATAAATGAAAAAATAACA
CTGGGATTTAATTTTGAAGTATCATCTGGAAATTGGAAAATGACTAAAATTTTTATGAAG
ATTATAAAAGCAATTCGTCAATTTTAA

>g17088.t1 Gene=g17088 Length=248
MKIFVVFVFIVRCNAFFDNLTGPYFLWSSENLDNFKLPALQAIDEQNLREIYSKFSKIKF
FIRNKTTIINKENFPKLSQIIDKSENWIYLPQQFLTIYPDAKNVEIFKLFGSMTEQDEKI
LEIFEDAQNKFGDKKVLRILATQNDMNKRTKREVEPNYLVYAVPGKILFYLYSPPELEIF
GENGKYSKYLLNKYLSISVDQKETFQQLFVNYQIINEKITLGFNFEVSSGNWKMTKIFMK
IIKAIRQF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g17088.t1 PANTHER PTHR12471:SF4 AGAP001624-PA 10 155 1.8E-26
3 g17088.t1 PANTHER PTHR12471 VACUOLAR ATP SYNTHASE SUBUNIT S1 10 155 1.8E-26
2 g17088.t1 PANTHER PTHR12471:SF4 AGAP001624-PA 157 237 1.8E-26
4 g17088.t1 PANTHER PTHR12471 VACUOLAR ATP SYNTHASE SUBUNIT S1 157 237 1.8E-26
7 g17088.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
8 g17088.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
9 g17088.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
10 g17088.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 15 -
6 g17088.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 248 -
5 g17088.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 15 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:1902600 proton transmembrane transport BP
GO:0033180 proton-transporting V-type ATPase, V1 domain CC

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed